Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 36 of 250
Found at i:10835130 original size:47 final size:47
Alignment explanation
Indices: 10835052--10835360 Score: 424
Period size: 47 Copynumber: 6.6 Consensus size: 47
10835042 CCCTTCGGGA
* * * * * *
10835052 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10835099 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10835146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10835193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
10835240 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * ** *
10835287 CTTATCACACATACACA-TGTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
*
10835334 CTTATCACACATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
10835361 TATTCAAATA
Statistics
Matches: 240, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 238 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10837147 original size:81 final size:81
Alignment explanation
Indices: 10837012--10837173 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
10837002 CAAATCAACA
10837012 ATGCAACCAGAATTTGTCAACGAAAAGCTATGGGCAAGGGAGAGTTTAGAAGAGTTACCCTTCTA
1 ATGCAACCAGAATTTGTCAACGAAAAGCTATGGGCAAGGGAGAGTTTAGAAGAGTTACCCTTCTA
10837077 CTTGAAAATTTTAACT
66 CTTGAAAATTTTAACT
10837093 ATGCAACCAGAATTTGTCAACGAAAAGCTATGGGCAAGGGAGAGTTTAGAAGAGTTACCCTTCTA
1 ATGCAACCAGAATTTGTCAACGAAAAGCTATGGGCAAGGGAGAGTTTAGAAGAGTTACCCTTCTA
10837158 CTTGAAAATTTTAACT
66 CTTGAAAATTTTAACT
10837174 TCTAAGCAAC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (81 bp):
ATGCAACCAGAATTTGTCAACGAAAAGCTATGGGCAAGGGAGAGTTTAGAAGAGTTACCCTTCTA
CTTGAAAATTTTAACT
Found at i:10847154 original size:20 final size:19
Alignment explanation
Indices: 10847121--10847160 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10847111 CCGTCAGAAG
*
10847121 AAAATAAATGAAAACTTAA
1 AAAATAAATAAAAACTTAA
*
10847140 AAAATAAAATAAAAATTTAA
1 AAAAT-AAATAAAAACTTAA
10847160 A
1 A
10847161 TTGCAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATAAAAACTTAA
Found at i:10852723 original size:64 final size:64
Alignment explanation
Indices: 10852521--10852836 Score: 278
Period size: 64 Copynumber: 4.8 Consensus size: 64
10852511 CATAATTTTG
** * * * *
10852521 GCTCTCTTGTACACATGGTG-AGCACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGTTTACATGGTGTA-CACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * * * * *
10852584 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTTTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCG
10852649 TA
63 TA
* * * * *
10852651 GCTTTCTTGTTTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATA
1 GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * *
10852715 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT--T--TATCTC
10852780 GTA
62 GTA
** * * * ** *
10852783 GCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGTTTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACAT
10852837 ACCATTTGTA
Statistics
Matches: 207, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
63 18 0.09
64 86 0.42
66 23 0.11
67 31 0.15
68 49 0.24
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
Found at i:10852828 original size:132 final size:127
Alignment explanation
Indices: 10852521--10852837 Score: 305
Period size: 132 Copynumber: 2.4 Consensus size: 127
10852511 CATAATTTTG
* * * * *
10852521 GCTCTCTTGTACACATGGTGAGCACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCGTAG
1 GCTCTCTTGTACACATGGTGTGCAC-TAGTACCA-TCATGTGACCTAGCTACATATATCCCATAG
* * * *
10852585 CTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCGT
64 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGT
10852650 A
127 A
* ** * * * *
10852651 GCTTTCTTGTTTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATAG
1 GCTCTCTTGTACACATGGTGTGCAC-TAGTACCA-TCATGTGACCTAGCTACATATATCCCATAG
* * * * *
10852716 CTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
64 CTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACAT--T--TATCTC
10852780 GTA
125 GTA
* *
10852783 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTGCACT-AGTACCAT-CATGTGACCTAGCTACATA
10852838 CCATTTGTAT
Statistics
Matches: 149, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
128 27 0.18
130 43 0.29
131 28 0.19
132 51 0.34
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (127 bp):
GCTCTCTTGTACACATGGTGTGCACTAGTACCATCATGTGACCTAGCTACATATATCCCATAGCT
CTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGTA
Found at i:10857603 original size:51 final size:50
Alignment explanation
Indices: 10857545--10857654 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 50
10857535 TACACTTTAG
*
10857545 AAAAAAAAGGGGCCAAGGTGAAA-ACCCGA-AAAGGGCGCTTTGAGACCTTCA
1 AAAAAAAAGGGGCCAAGGT-AAATACCC-ACAAAGGGCACTTTGAGA-CTTCA
* * * *
10857596 AAAAAAAAAGGGCTAAGGTAAATTCCCACAAAGGGCACTTTGAGACTTTA
1 AAAAAAAAGGGGCCAAGGTAAATACCCACAAAGGGCACTTTGAGACTTCA
10857646 AAAAAAAAG
1 AAAAAAAAG
10857655 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (50 bp):
AAAAAAAAGGGGCCAAGGTAAATACCCACAAAGGGCACTTTGAGACTTCA
Found at i:10859349 original size:113 final size:113
Alignment explanation
Indices: 10859151--10859358 Score: 319
Period size: 113 Copynumber: 1.8 Consensus size: 113
10859141 GTGATCTTCA
*
10859151 TGATAGGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
1 TGATAAGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
* *
10859216 TGTACCTATCGAGCAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
66 TGTACCTATCAAACAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
* ** *
10859264 TGATAAGTTTT-ATAAATTTATAATTAATCGTTCTTGAAACTAACTATTATCACGATGTCGGCAA
1 TGATAAGTTTTGA-AAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAA
* *
10859328 GTGTACCTATCAAATAGTAGTATAGTTTTAG
65 GTGTACCTATCAAACAGTAGTATAGCTTTAG
10859359 CAAGACCGGA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 1 0.01
113 84 0.99
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (113 bp):
TGATAAGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
TGTACCTATCAAACAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
Found at i:10888883 original size:12 final size:13
Alignment explanation
Indices: 10888866--10888903 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10888856 ATCTTGGAAT
10888866 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
10888878 ATTAAGAACACATA
1 ATTAAGAACA-AGA
10888892 ATTAAGAACAAG
1 ATTAAGAACAAG
10888904 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:10889691 original size:44 final size:44
Alignment explanation
Indices: 10889643--10889732 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
10889633 TTTAGCCACC
* * *
10889643 AGCCTTATC-TCTCTGAGGTAGCAAGGGAGTAGGCTGAAGATTGT
1 AGCCTTATCTTCT-TGAGGCAGCAAGGGAGCAGACTGAAGATTGT
*
10889687 AGCCTTATCTTCTTGAGGCAGCAAGGGAGCAGATTGAAGATTGT
1 AGCCTTATCTTCTTGAGGCAGCAAGGGAGCAGACTGAAGATTGT
10889731 AG
1 AG
10889733 ATTTTGTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.93
45 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (44 bp):
AGCCTTATCTTCTTGAGGCAGCAAGGGAGCAGACTGAAGATTGT
Found at i:10890016 original size:177 final size:178
Alignment explanation
Indices: 10889607--10890016 Score: 633
Period size: 178 Copynumber: 2.3 Consensus size: 178
10889597 CAGTTTATCA
* *
10889607 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAG
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
* * *
10889672 TAGGCTGAAGATTGTAGCCTTATCTTCTTGAGGCAGCAAGGGAGCAGATTGAAGATTGTAGATTT
66 TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGCAGCAAGGGAGCAGATTGAAGACTGTAGATTT
* *
10889737 TGTCTCCTTGAGATAGCAGTGGGGCAGATCGAAGACGATGAATCTTAT
131 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
10889785 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
* * * *
10889850 TAGGCTGGAGATTGTAGTCTTATTTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGTAGA-TT
66 TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGCAGCAAGGGAGCAGATTGAAGACTGTAGATTT
* *
10889914 TGTCTCCTCGAGATAGTAGTGGGGAAGATCGAAGATGATGAATCTTAT
131 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
** * ** * *
10889962 CTTCTTGAGGTAGTAGGGGAGCAGATTAAAGTCACCAGCCTTATCTCCCTAAAGT
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGT
10890017 TGCAGTGAAG
Statistics
Matches: 212, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
177 94 0.44
178 118 0.56
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (178 bp):
CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGCAGCAAGGGAGCAGATTGAAGACTGTAGATTT
TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
Found at i:10903884 original size:20 final size:18
Alignment explanation
Indices: 10903837--10903885 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
10903827 CAAGATAAAC
10903837 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10903854 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10903874 ATTAAATTAATA
1 ATTAAATTAATA
10903886 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10903939 original size:17 final size:17
Alignment explanation
Indices: 10903904--10903936 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10903894 TTAAGATAAG
*
10903904 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
10903921 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
10903937 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:10904733 original size:36 final size:36
Alignment explanation
Indices: 10904683--10904756 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
10904673 CAGTTTGAAC
10904683 TTAGATAATAAATGAACTAATA-TTTCATTATCACAA
1 TTAGATAATAAATGAACTAATATTTTC-TTATCACAA
*
10904719 TTAGATAATCAATGAACTAATATTTTCTTATCACAA
1 TTAGATAATAAATGAACTAATATTTTCTTATCACAA
10904755 TT
1 TT
10904757 TCGCTATGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.39
Consensus pattern (36 bp):
TTAGATAATAAATGAACTAATATTTTCTTATCACAA
Found at i:10915643 original size:23 final size:23
Alignment explanation
Indices: 10915616--10915663 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10915606 ATCTATTTTT
* *
10915616 TTATTTTCTTAATAAATTATATA
1 TTATTTTCATAAAAAATTATATA
*
10915639 TTATTTTGATAAAAAATTATATA
1 TTATTTTCATAAAAAATTATATA
10915662 TT
1 TT
10915664 TTATGTGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATTTTCATAAAAAATTATATA
Found at i:10916446 original size:3 final size:3
Alignment explanation
Indices: 10916432--10916463 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10916422 ATAGTTTACC
*
10916432 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10916464 ACTACTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10918669 original size:45 final size:45
Alignment explanation
Indices: 10918601--10918776 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
10918591 AATATCGTAT
** *
10918601 GATACTAATCGGGCCTTTAAGCCTAGCAAGCTATAATGCCGGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
*
10918646 GATACTAATCGGGCCCTT-GAGCCTAGCAGGTTATAATGCCGGTGA
1 GATACTAATCGGG-CCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
10918691 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* *
10918736 AATGA-T-ATCGGG-CTTCGAGCCTAGCAGGCAAT-ATGCCGGTG
1 GAT-ACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
10918777 GATGAATTCA
Statistics
Matches: 122, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
42 9 0.07
43 19 0.16
44 10 0.08
45 79 0.65
46 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (45 bp):
GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:10927465 original size:12 final size:12
Alignment explanation
Indices: 10927443--10927496 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
10927433 AAGTCTAAGA
*
10927443 AAATAACAATAG
1 AAATAAAAATAG
*
10927455 ACATAAAAATAG
1 AAATAAAAATAG
* *
10927467 AAATAAAACTAAA
1 AAATAAAAAT-AG
10927480 AAATAAAAATA-
1 AAATAAAAATAG
10927491 AAATAA
1 AAATAA
10927497 GATAAATGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 6 0.17
12 19 0.54
13 10 0.29
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (12 bp):
AAATAAAAATAG
Found at i:10927487 original size:6 final size:6
Alignment explanation
Indices: 10927442--10927493 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
10927432 GAAGTCTAAG
* * * * *
10927442 AAAATA ACAATA GACATA AAAATA GAAATA AAACTAA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
10927491 AAA
1 AAA
10927494 TAAGATAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10928513 original size:23 final size:23
Alignment explanation
Indices: 10928470--10928513 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10928460 CCAATTCAAC
*
10928470 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
10928493 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
10928514 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:10936338 original size:22 final size:23
Alignment explanation
Indices: 10936313--10936358 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10936303 CAACCAAACC
10936313 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
10936335 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
10936358 A
1 A
10936359 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:10936364 original size:23 final size:23
Alignment explanation
Indices: 10936320--10936364 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10936310 ACCAATTCAA
*
10936320 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
10936343 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
10936365 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:10941010 original size:25 final size:25
Alignment explanation
Indices: 10940976--10941025 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10940966 TGGAAGAAAA
10940976 CTCAAGCATTCCAGAACTATATAGT
1 CTCAAGCATTCCAGAACTATATAGT
10941001 CTCAAGCATTCCAGAACTATATAGT
1 CTCAAGCATTCCAGAACTATATAGT
10941026 GAAACTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (25 bp):
CTCAAGCATTCCAGAACTATATAGT
Found at i:10941331 original size:3 final size:3
Alignment explanation
Indices: 10941317--10941380 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
10941307 AGACAATTCA
*
10941317 AAT AACT AAT AAT AAG AAT AAT AAT AAAT AAT AAAT AAAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT -AAT -AAT AAT AAT AAT
* *
10941365 -AT ACT ACT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
10941381 ATAAGGAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 4 0.08
3 35 0.67
4 13 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:10941346 original size:26 final size:24
Alignment explanation
Indices: 10941316--10941381 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
10941306 AAGACAATTC
10941316 AAATAACTAATAATAAGAATAATAAT
1 AAATAACTAATAATAA-AATAAT-AT
10941342 AAATAA-TAAATAAATAAAATAATAT
1 AAATAACT-AAT-AATAAAATAATAT
*
10941367 -ACT-ACTAATAATAAA
1 AAATAACTAATAATAAA
10941382 TAAGGAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 6 0.17
23 4 0.11
24 3 0.08
25 3 0.08
26 15 0.42
27 5 0.14
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATAACTAATAATAAAATAATAT
Found at i:10942923 original size:24 final size:24
Alignment explanation
Indices: 10942896--10942966 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
10942886 GATTTTGTGA
10942896 CACATCTCTGAATTACTTGATCTG
1 CACATCTCTGAATTACTTGATCTG
* * *
10942920 CACAT-TTTGATTTTC-TGA--T-
1 CACATCTCTGAATTACTTGATCTG
*
10942939 -ACATCTCTGAGTTACTTGATCTG
1 CACATCTCTGAATTACTTGATCTG
10942962 CACAT
1 CACAT
10942967 ACACAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 4 0.11
22 4 0.11
23 7 0.20
24 9 0.26
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (24 bp):
CACATCTCTGAATTACTTGATCTG
Found at i:10942944 original size:42 final size:42
Alignment explanation
Indices: 10942885--10942966 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
10942875 TACTCTCTTC
*
10942885 TGATTTTGTGACACATCTCTGAATTACTTGATCTGCACATTT
1 TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACATTT
* *
10942927 TGATTTTCTGATACATCTCTGAGTTACTTGATCTGCACAT
1 TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACAT
10942967 ACACAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (42 bp):
TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACATTT
Found at i:10948283 original size:27 final size:27
Alignment explanation
Indices: 10948253--10948457 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
10948243 ATATTAAGTC
* *
10948253 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
10948280 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
10948308 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
10948335 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
10948362 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
10948389 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
10948416 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
10948443 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10948458 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10948392 original size:54 final size:54
Alignment explanation
Indices: 10948253--10948456 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
10948243 ATATTAAGTC
* * * **
10948253 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
10948308 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
10948362 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
10948416 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
10948457 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:10948422 original size:81 final size:81
Alignment explanation
Indices: 10948307--10948456 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
10948297 ATAATCAAAC
* * * * * *
10948307 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
10948372 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
10948388 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
10948453 GTGC
66 GTGC
10948457 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:10956442 original size:27 final size:27
Alignment explanation
Indices: 10956412--10956616 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
10956402 ATATTAAGTC
* *
10956412 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
10956439 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
10956467 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
10956494 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
10956521 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
10956548 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
10956575 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
10956602 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10956617 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10956551 original size:54 final size:54
Alignment explanation
Indices: 10956412--10956615 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
10956402 ATATTAAGTC
* * * **
10956412 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
10956467 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
10956521 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
10956575 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
10956616 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:10956581 original size:81 final size:81
Alignment explanation
Indices: 10956466--10956615 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
10956456 ATAATCAAAC
* * * * * *
10956466 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
10956531 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
10956547 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
10956612 GTGC
66 GTGC
10956616 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:10962470 original size:5 final size:5
Alignment explanation
Indices: 10962460--10962503 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
10962450 ATTTATCCAT
* * *
10962460 TTTTA TTTTA TTTTA TTTTA TTTTA TATT- TTTTG TTTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
10962504 AATTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:10962497 original size:19 final size:19
Alignment explanation
Indices: 10962460--10962509 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10962450 ATTTATCCAT
*
10962460 TTTTATTTTATTTTATTTTA
1 TTTTATATT-TTTTATTTTA
*
10962480 TTTTATATTTTTTGTTTTA
1 TTTTATATTTTTTATTTTA
* *
10962499 ATTTAAATTTT
1 TTTTATATTTT
10962510 CTTTTGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATATTTTTTATTTTA
Found at i:10976063 original size:13 final size:13
Alignment explanation
Indices: 10976045--10976070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10976035 TTCAAACTAC
10976045 TTTTTATTTTTTA
1 TTTTTATTTTTTA
10976058 TTTTTATTTTTTA
1 TTTTTATTTTTTA
10976071 GCAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:10999990 original size:24 final size:24
Alignment explanation
Indices: 10999913--10999990 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
10999903 TTTTAAATTA
* **
10999913 TTTTACATATTATTTCCTTTAAGT
1 TTTTACATATTATATATTTTAAGT
* * **
10999937 TTTTATGTACATTATATATTTTAAAC
1 TTTTA--CATATTATATATTTTAAGT
10999963 TTTTACATATTATATATTTTAAGT
1 TTTTACATATTATATATTTTAAGT
10999987 TTTT
1 TTTT
10999991 TTTTACATAT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 24 0.59
26 17 0.41
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTACATATTATATATTTTAAGT
Found at i:10999992 original size:26 final size:26
Alignment explanation
Indices: 10999896--11000011 Score: 87
Period size: 28 Copynumber: 4.4 Consensus size: 26
10999886 TGTTTCATTA
* *
10999896 TATATTATTTTAAATTATTTTACATAT
1 TATA-TATTTTAAGTTTTTTTACATAT
* **
10999923 TATTTCCTTTAAGTTTTTATGTAC--AT
1 TATATATTTTAAGTTTTT-T-TACATAT
**
10999949 TATATATTTTAA--ACTTTTACATAT
1 TATATATTTTAAGTTTTTTTACATAT
10999973 TATATATTTTAAGTTTTTTTTTACATAT
1 TATATATTTTAAG--TTTTTTTACATAT
*
11000001 TATGTATTTTA
1 TATATATTTTA
11000012 TATGTTATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 16 0.24
26 21 0.31
27 4 0.06
28 23 0.34
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TATATATTTTAAGTTTTTTTACATAT
Found at i:11000047 original size:27 final size:27
Alignment explanation
Indices: 11000007--11000063 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
10999997 ATATTATGTA
*
11000007 TTTTATATGTTATTCATGTTAAATTTT
1 TTTTATATGTTATTCATGTTAAATTGT
*
11000034 TTTTATATAG-TATTCATTTTAAATTGT
1 TTTTATAT-GTTATTCATGTTAAATTGT
11000061 TTT
1 TTT
11000064 AATACATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (27 bp):
TTTTATATGTTATTCATGTTAAATTGT
Found at i:11000073 original size:26 final size:27
Alignment explanation
Indices: 11000017--11000089 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
11000007 TTTTATATGT
* * * *
11000017 TATTCATGTTAAATTTTTTTTATATAG
1 TATTCATTTTAAATTATTTTAATACAG
*
11000044 TATTCATTTTAAATTGTTTTAATACA-
1 TATTCATTTTAAATTATTTTAATACAG
*
11000070 TATT-ATTTTGAATTATTTTA
1 TATTCATTTTAAATTATTTTA
11000090 TATATTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.35
26 4 0.10
27 22 0.55
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (27 bp):
TATTCATTTTAAATTATTTTAATACAG
Found at i:11000407 original size:26 final size:24
Alignment explanation
Indices: 11000321--11000579 Score: 122
Period size: 26 Copynumber: 10.6 Consensus size: 24
11000311 TTATTTTATG
*
11000321 TATATTATTTATTTTAAATTTCTTTT
1 TATATTATTTATTTTAAA-TT-GTTT
* * *
11000347 TACATATTATTTATTTTAGACT-TTC
1 T--ATATTATTTATTTTAAATTGTTT
*
11000372 TATA-T-GTTATTTTAAATTGTTAT
1 TATATTATTTATTTTAAATTGTT-T
**
11000395 ATATATTATTTATTTTAAATT-ACT
1 -TATATTATTTATTTTAAATTGTTT
* *
11000419 T-T-GT-TTTATTTTAAATTTTTTT
1 TATATTATTTATTTTAAA-TTGTTT
* * *
11000441 GTATATTAATTATTTTAGATTGCTT
1 -TATATTATTTATTTTAAATTGTTT
* * *
11000466 TATACTATTCACTTTAAATTGCTTTT
1 TATATTATTTATTTTAAATTG--TTT
* * *
11000492 TATAATATCTATTTTAAACTTATTTT
1 TATATTATTTATTTTAAA-TT-GTTT
*
11000518 TATGTATTATTTATTTTAAATTG-TC
1 TA--TATTATTTATTTTAAATTGTTT
* *
11000543 T-CATTATTTATTTTAAATGGTTT
1 TATATTATTTATTTTAAATTGTTT
* *
11000566 TATGTTATATATTT
1 TATATTATTTATTT
11000580 CATTCTTTTG
Statistics
Matches: 173, Mismatches: 39, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
20 11 0.06
21 13 0.08
22 22 0.13
23 7 0.04
24 31 0.18
25 11 0.06
26 43 0.25
27 5 0.03
28 30 0.17
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
TATATTATTTATTTTAAATTGTTT
Found at i:11000446 original size:46 final size:45
Alignment explanation
Indices: 11000328--11000509 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 45
11000318 ATGTATATTA
* * *
11000328 TTTATTTTAAATTTCTTTTTACATATTATTTATTTTAGACTTTCTATAT
1 TTTATTTTAAATTT-TTTTT--ATATTATTTATTTTA-AATTACTTTAT
* * * *
11000377 GTTATTTTAAATTGTTATATATATTATTTATTTTAAATTACTTTGT
1 TTTATTTTAAATT-TTTTTTATATTATTTATTTTAAATTACTTTAT
* * *
11000423 TTTATTTTAAATTTTTTTGTATATTAATTATTTTAGATTGCTTTAT
1 TTTATTTTAAATTTTTTT-TATATTATTTATTTTAAATTACTTTAT
* * * *
11000469 ACTATTCACTTTAAATTGCTTTTTATAATATCTATTTTAAA
1 --T-TT-ATTTTAAATT-TTTTTTATATTATTTATTTTAAA
11000510 CTTATTTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
45 3 0.03
46 42 0.40
47 15 0.14
48 1 0.01
49 17 0.16
50 24 0.23
51 4 0.04
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (45 bp):
TTTATTTTAAATTTTTTTTATATTATTTATTTTAAATTACTTTAT
Found at i:11003977 original size:19 final size:19
Alignment explanation
Indices: 11003953--11003999 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11003943 AACGTTTCTT
*
11003953 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTCCA-TCA
11003972 TTTGCATTACATTCCATCA
1 TTTGCATTACATTCCATCA
*
11003991 TATGCATTA
1 TTTGCATTA
11004000 AGTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:11011690 original size:44 final size:44
Alignment explanation
Indices: 11011627--11011738 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
11011617 AATCATGGAG
* * * * *
11011627 AATCTTATCTTTTTAAAGTTGCAGCGGAGCAGATTGAAGCCACT
1 AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
* *
11011671 AATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAACCACA
1 AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
* *
11011715 AACCTTATCTTCCTGAAGTTGCAG
1 AATCTTATCTTTCTGAAGTTGCAG
11011739 GAAAGCAGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
Found at i:11011823 original size:45 final size:45
Alignment explanation
Indices: 11011683--11011829 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 45
11011673 TCTTATCTTT
* ** * *
11011683 CTGAAGTTGCAGTGGAGTAGATT-AAAACCACAAACCTTATCTT-C
1 CTGAAGTTGCAGTGGAGTAGATTGAAGATAACAAATCTCAT-TTCC
* * * ** *
11011727 CTGAAGTTGCAG-GAAAGCAGGTTGAAG-TAATGAATCTCATCTCC
1 CTGAAGTTGCAGTG-GAGTAGATTGAAGATAACAAATCTCATTTCC
*
11011771 CTAAAGTTGCAGTGGAGTAGATTGAAGATAACAAATCTCATTTCC
1 CTGAAGTTGCAGTGGAGTAGATTGAAGATAACAAATCTCATTTCC
*
11011816 CTGAAGTTGTAGTG
1 CTGAAGTTGCAGTG
11011830 AAACAGATTA
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
43 2 0.03
44 47 0.60
45 29 0.37
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGAAGTTGCAGTGGAGTAGATTGAAGATAACAAATCTCATTTCC
Found at i:11011838 original size:45 final size:44
Alignment explanation
Indices: 11011712--11011838 Score: 121
Period size: 45 Copynumber: 2.9 Consensus size: 44
11011702 GATTAAAACC
* * * *
11011712 ACAAACCTTATCTTCCTGAAGTTGCAG-GAAAGCAGGTTGAAGTA
1 ACAAATCTCATCTCCCTGAAGTTGCAGTGAAA-CAGATTGAAGTA
** * * **
11011756 ATGAATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATA
1 ACAAATCTCATCTCCCTGAAGTTGCAGTGAAACAGATTGAAG-TA
* *
11011801 ACAAATCTCATTTCCCTGAAGTTGTAGTGAAACAGATT
1 ACAAATCTCATCTCCCTGAAGTTGCAGTGAAACAGATT
11011839 AAAGCTGCAA
Statistics
Matches: 63, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 29 0.46
45 34 0.54
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (44 bp):
ACAAATCTCATCTCCCTGAAGTTGCAGTGAAACAGATTGAAGTA
Found at i:11011974 original size:44 final size:44
Alignment explanation
Indices: 11011907--11012024 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
11011897 CCATGACGAT
* * * *
11011907 TCTTATCTCCCTAAAGTTACAGTGGAGCAAACTGAAGCCACTAA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAAACTGAAGCCACAAA
***
11011951 TCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAAACTGAAGCCACAAA
* * *
11011995 CCTTACCT-CATTGAAGTTGTAGTGGAGCAA
1 TCTTATCTCCA-TGAAGTTGCAGTGGAGCAA
11012025 GTTGAAGTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
43 2 0.03
44 60 0.97
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCATGAAGTTGCAGTGGAGCAAACTGAAGCCACAAA
Found at i:11012029 original size:44 final size:44
Alignment explanation
Indices: 11011920--11012031 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
11011910 TATCTCCCTA
* ** * * *
11011920 AAGTTACAGTGGAGCAAACTGAAGCCACTAATCTTATCTCCATG
1 AAGTTGCAGTGGAGCAAGTTGAAGCCACAAACCTTACCTCCATG
*
11011964 AAGTTGCAGTGGAGCAGGTTGAAGCCACAAACCTTACCT-CATTG
1 AAGTTGCAGTGGAGCAAGTTGAAGCCACAAACCTTACCTCCA-TG
*
11012008 AAGTTGTAGTGGAGCAAGTTGAAG
1 AAGTTGCAGTGGAGCAAGTTGAAG
11012032 TTCAAGTCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.03
44 56 0.97
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAAGTTGAAGCCACAAACCTTACCTCCATG
Found at i:11013687 original size:26 final size:25
Alignment explanation
Indices: 11013653--11013744 Score: 96
Period size: 26 Copynumber: 3.6 Consensus size: 25
11013643 TCATTATATA
11013653 TTATTTTAAATTATTTTACATATTAT
1 TTATTTTAAATT-TTTTACATATTAT
* * * *
11013679 TTCTTTTAAGTTTTTATAGACATTAT
1 TTATTTTAAATTTTT-TACATATTAT
*
11013705 TTATTTTAAA-CTTTTACATATTAT
1 TTATTTTAAATTTTTTACATATTAT
* *
11013729 ATATTTTAAGTTTTTT
1 TTATTTTAAATTTTTT
11013745 TTTTTACATA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
24 16 0.31
25 10 0.19
26 26 0.50
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TTATTTTAAATTTTTTACATATTAT
Found at i:11013693 original size:24 final size:24
Alignment explanation
Indices: 11013666--11013743 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
11013656 TTTTAAATTA
*
11013666 TTTTACATATTATTTCTTTTAAGTT
1 TTTTACATATTATTTATTTTAAG-T
* * **
11013691 TTTATAGACATTATTTATTTTAAAC
1 TTT-TACATATTATTTATTTTAAGT
*
11013716 TTTTACATATTATATATTTTAAGT
1 TTTTACATATTATTTATTTTAAGT
11013740 TTTT
1 TTTT
11013744 TTTTTTACAT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
24 20 0.48
25 6 0.14
26 16 0.38
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTACATATTATTTATTTTAAGT
Found at i:11014098 original size:36 final size:35
Alignment explanation
Indices: 11013991--11014082 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 35
11013981 TTATTTTCAA
* *
11013991 ATTTT-TGTATATTATTTATCTTAAACTCTTTTAT
1 ATTTTATGTATATTATTTATATTAAACTCTTTTTT
*
11014025 ACGTTATTATATATATTATTTATATTAAACAGT-TTTTTT
1 A--TT-TTATGTATATTATTTATATTAAAC--TCTTTTTT
11014064 ATTTTATGTATATTATTTA
1 ATTTTATGTATATTATTTA
11014083 CTTTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
34 1 0.02
36 17 0.35
37 4 0.08
38 19 0.40
39 6 0.12
40 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.60
Consensus pattern (35 bp):
ATTTTATGTATATTATTTATATTAAACTCTTTTTT
Found at i:11014154 original size:22 final size:21
Alignment explanation
Indices: 11014096--11014156 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11014086 TAAATTTCTT
*
11014096 TTTATATATTATTTATTTTAGAC
1 TTTATATA-TA-TTATTTTAAAC
* * *
11014119 TTTCTATATGTTATTTTAAAT
1 TTTATATATATTATTTTAAAC
11014140 TGTTATATATATTATTT
1 T-TTATATATATTATTT
11014157 ATTTTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 7 0.23
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTATATATATTATTTTAAAC
Found at i:11018093 original size:15 final size:16
Alignment explanation
Indices: 11018061--11018094 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11018051 ACAAAAGATA
*
11018061 AATAAAGGAATCAAAG
1 AATAAAGGAATAAAAG
11018077 AATAAAGGAA-AAAAG
1 AATAAAGGAATAAAAG
11018092 AAT
1 AAT
11018095 GCTCGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.68, C:0.03, G:0.18, T:0.12
Consensus pattern (16 bp):
AATAAAGGAATAAAAG
Found at i:11019857 original size:10 final size:10
Alignment explanation
Indices: 11019842--11019868 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11019832 AATAAAATTT
11019842 TAATTTTTAA
1 TAATTTTTAA
11019852 TAATTTTTAA
1 TAATTTTTAA
11019862 TAATTTT
1 TAATTTT
11019869 AAATGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:11021811 original size:39 final size:39
Alignment explanation
Indices: 11021768--11021846 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11021758 TACAAATAAA
*
11021768 TAACTTAAAATTTTTGTTTATTTAAATTTTCAAAAATAT
1 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
11021807 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
1 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
11021846 T
1 T
11021847 CTCTAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (39 bp):
TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
Found at i:11028576 original size:50 final size:50
Alignment explanation
Indices: 11028494--11028822 Score: 290
Period size: 50 Copynumber: 6.6 Consensus size: 50
11028484 GATTAACTGG
* * * * * * *
11028494 AAAGCCTTTGTGCCATAATATCTAGAAAGCCTTTGTAGTTAATCTTATGA
1 AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * * *
11028544 AAATATTTTGTGGTGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGA
1 AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * * *
11028594 AAA-ACCTTTATGGCATATTATTTGGAAAGCCTTTATGGCTAATCTTATGA
1 AAAGA-CTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
** * * *
11028644 AAACTCTTTGTGGCGTATTATATGTAAATCCTTTGTGGCGTATTATC-TA-G-
1 AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGC-TA--ATCTTATGA
* * * * *
11028694 AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTCGCTAATATTAAGA
1 AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * * *
11028744 GAAGCCTTTGTGGCGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGC
1 AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * *
11028794 AAAG-CTATTGTGGCATATTGTATGGAAAG
1 AAAGACT-TTGTGGCGTATTATCTGGAAAG
11028823 ATTGTTGATG
Statistics
Matches: 227, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 6 0.03
50 209 0.92
51 3 0.01
52 2 0.01
53 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (50 bp):
AAAGACTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
Found at i:11028578 original size:25 final size:25
Alignment explanation
Indices: 11028550--11028782 Score: 174
Period size: 25 Copynumber: 9.3 Consensus size: 25
11028540 ATGAAAATAT
* *
11028550 TTTGTGGTGTATTGTCTGGAAAGCC
1 TTTGTGGCGTATTATCTGGAAAGCC
* * *
11028575 TTTGTGGC-TAATCT-TATGAAAAACC
1 TTTGTGGCGT-AT-TATCTGGAAAGCC
* * *
11028600 TTTATGGCATATTATTTGGAAAGCC
1 TTTGTGGCGTATTATCTGGAAAGCC
* * *
11028625 TTTATGGC-TA--ATCTTATGAAAACTC
1 TTTGTGGCGTATTATC-T-GGAAAGC-C
* * *
11028650 TTTGTGGCGTATTATATGTAAATCC
1 TTTGTGGCGTATTATCTGGAAAGCC
*
11028675 TTTGTGGCGTATTATCTAGAAAGCC
1 TTTGTGGCGTATTATCTGGAAAGCC
*
11028700 TTTGTGGCGTATTATCTAGAAAGCC
1 TTTGTGGCGTATTATCTGGAAAGCC
* * *
11028725 TTTGTCGC-TAATAT-TAAGAGAAGCC
1 TTTGTGGCGTATTATCT-GGA-AAGCC
*
11028750 TTTGTGGCGTATTGTCTGGAAAGCC
1 TTTGTGGCGTATTATCTGGAAAGCC
11028775 TTTGTGGC
1 TTTGTGGC
11028783 TAATCTTATG
Statistics
Matches: 168, Mismatches: 26, Indels: 28
0.76 0.12 0.13
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 17 0.10
25 129 0.77
26 14 0.08
27 2 0.01
28 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
TTTGTGGCGTATTATCTGGAAAGCC
Found at i:11028653 original size:75 final size:73
Alignment explanation
Indices: 11028568--11028807 Score: 234
Period size: 75 Copynumber: 3.2 Consensus size: 73
11028558 GTATTGTCTG
* * * * *
11028568 GAAAGCCTTTGTGGCTAATCTTATGAAAAACCTTTATGGCATATTATTTGGAAAGCCTTTATGGC
1 GAAAACCTTTGTGGCTAAT-TTATGAAAAACCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGC
11028633 TAATCTTAT
65 TAATCTTAT
* * *
11028642 GAAAACTCTTTGTGGCGT-ATTATATGTAAATCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTG
1 GAAAAC-CTTTGTGGC-TAATT-TATGAAAAACCTTTGTGGCGTATTATCTGGAAAGCCTTTGTG
11028706 GCGTATTATC-TA-
63 GC-TA--ATCTTAT
* * * * * *
11028718 GAAAGCCTTTGTCGCTAATATTAAGAGAAGCCTTTGTGGCGTATTGTCTGGAAAGCCTTTGTGGC
1 GAAAACCTTTGTGGCTAAT-TTATGAAAAACCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGC
11028783 TAATCTTAT
65 TAATCTTAT
* *
11028792 GCAAAGCTATTGTGGC
1 GAAAACCT-TTGTGGC
11028808 ATATTGTATG
Statistics
Matches: 135, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
72 3 0.02
73 2 0.01
74 14 0.10
75 102 0.76
76 9 0.07
77 2 0.01
78 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (73 bp):
GAAAACCTTTGTGGCTAATTTATGAAAAACCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCT
AATCTTAT
Found at i:11028677 original size:100 final size:99
Alignment explanation
Indices: 11028493--11028812 Score: 324
Period size: 100 Copynumber: 3.2 Consensus size: 99
11028483 GGATTAACTG
* * * * * *
11028493 GAAAGCCTTTGTGCCATAATATCTAGAAAGCCTTTGTAGTTAATCTTATGAAAA-TATTTTGTGG
1 GAAAACCTTTATGGCATATTATCTAGAAAGCCTTTGTAGCTAATCTTATGAAAACT-CTTTGTGG
*
11028557 TGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTAT
65 CGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTAT
* * * *
11028592 GAAAAACCTTTATGGCATATTATTTGGAAAGCCTTTATGGCTAATCTTATGAAAACTCTTTGTGG
1 G-AAAACCTTTATGGCATATTATCTAGAAAGCCTTTGTAGCTAATCTTATGAAAACTCTTTGTGG
* * * *
11028657 CGTATTATATGTAAATCCTTTGTGGCGTATTATC-TA-
65 CGTATTGTCTGGAAAGCCTTTGTGGC-TA--ATCTTAT
* * * * * * *
11028693 GAAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTCGCTAATATTAAGAGAAGC-CTTTGTGG
1 GAAAACCTTTATGGCATATTATCTAGAAAGCCTTTGTAGCTAATCTTATGA-AAACTCTTTGTGG
11028757 CGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTAT
65 CGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTAT
* * *
11028792 GCAAAGCTATTGTGGCATATT
1 GAAAACCT-TTATGGCATATT
11028813 GTATGGAAAG
Statistics
Matches: 179, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
97 3 0.02
98 2 0.01
99 8 0.04
100 154 0.86
101 7 0.04
102 2 0.01
103 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (99 bp):
GAAAACCTTTATGGCATATTATCTAGAAAGCCTTTGTAGCTAATCTTATGAAAACTCTTTGTGGC
GTATTGTCTGGAAAGCCTTTGTGGCTAATCTTAT
Found at i:11028797 original size:25 final size:25
Alignment explanation
Indices: 11028568--11028807 Score: 148
Period size: 25 Copynumber: 9.6 Consensus size: 25
11028558 GTATTGTCTG
11028568 GAAAGCCTTTGTGGC-TAATCTTAT
1 GAAAGCCTTTGTGGCGTAATCTTAT
* * * * *
11028592 GAAAAACCTTTATGGCATATTATT-T
1 G-AAAGCCTTTGTGGCGTAATCTTAT
*
11028617 GGAAAGCCTTTATGGC-TAATCTTAT
1 -GAAAGCCTTTGTGGCGTAATCTTAT
*
11028642 GAAAACTCTTTGTGGCGT-AT-TATAT
1 GAAAGC-CTTTGTGGCGTAATCT-TAT
*
11028667 GTAAATCCTTTGTGGCGTATTATC-TA-
1 G-AAAGCCTTTGTGGCGTA--ATCTTAT
11028693 GAAAGCCTTTGTGGCGTATTATC-TA-
1 GAAAGCCTTTGTGGCGTA--ATCTTAT
* * *
11028718 GAAAGCCTTTGTCGC-TAATATTAA
1 GAAAGCCTTTGTGGCGTAATCTTAT
*
11028742 GAGAAGCCTTTGTGGCGT-AT-TGTCT
1 GA-AAGCCTTTGTGGCGTAATCT-TAT
11028767 GGAAAGCCTTTGTGGC-TAATCTTAT
1 -GAAAGCCTTTGTGGCGTAATCTTAT
11028792 GCAAAG-CTATTGTGGC
1 G-AAAGCCT-TTGTGGC
11028808 ATATTGTATG
Statistics
Matches: 177, Mismatches: 17, Indels: 43
0.75 0.07 0.18
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 21 0.12
25 132 0.75
26 16 0.09
27 2 0.01
28 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGTAATCTTAT
Found at i:11028817 original size:25 final size:24
Alignment explanation
Indices: 11028550--11028822 Score: 137
Period size: 25 Copynumber: 10.9 Consensus size: 24
11028540 ATGAAAATAT
* *
11028550 TTTGTGGTGTATTGTCTGGAAAGCC
1 TTTGTGG-CTATTGTATGGAAAGCC
* *
11028575 TTTGTGGCTAATCT-TATGAAAAACC
1 TTTGTGGCT-AT-TGTATGGAAAGCC
* * *
11028600 TTTATGGCATATTATTTGGAAAGCC
1 TTTGTGGC-TATTGTATGGAAAGCC
* *
11028625 TTTATGGCTAATCT-TAT-GAAAACTC
1 TTTGTGGCT-AT-TGTATGGAAAGC-C
* * *
11028650 TTTGTGGCGTATTATATGTAAATCC
1 TTTGTGGC-TATTGTATGGAAAGCC
* * *
11028675 TTTGTGGCGTATTATCTAGAAAGCC
1 TTTGTGGC-TATTGTATGGAAAGCC
* * *
11028700 TTTGTGGCGTATTATCTAGAAAGCC
1 TTTGTGGC-TATTGTATGGAAAGCC
* *
11028725 TTTGTCGCTAATAT-TA-AGAGAAGCC
1 TTTGTGGCT-AT-TGTATGGA-AAGCC
*
11028750 TTTGTGGCGTATTGTCTGGAAAGCC
1 TTTGTGGC-TATTGTATGGAAAGCC
*
11028775 TTTGTGGCTAATCT-TATGCAAAG-C
1 TTTGTGGCT-AT-TGTATGGAAAGCC
11028799 TATTGTGGCATATTGTATGGAAAG
1 T-TTGTGGC-TATTGTATGGAAAG
11028823 ATTGTTGATG
Statistics
Matches: 202, Mismatches: 25, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
24 18 0.09
25 170 0.84
26 14 0.07
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (24 bp):
TTTGTGGCTATTGTATGGAAAGCC
Found at i:11030761 original size:40 final size:40
Alignment explanation
Indices: 11030567--11030747 Score: 201
Period size: 40 Copynumber: 4.5 Consensus size: 40
11030557 ATGATGTCCA
* ** * *
11030567 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGAGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCG
* * *
11030607 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
11030647 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
*
11030686 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
11030726 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
11030748 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:11030769 original size:79 final size:79
Alignment explanation
Indices: 11030616--11030770 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
11030606 GGACTAAGAT
* **
11030616 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
11030681 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
11030695 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
11030758 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
11030771 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:11035060 original size:46 final size:46
Alignment explanation
Indices: 11035007--11035182 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
11034997 TATTTGGGCA
11035007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
11035053 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
11035098 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
11035146 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11035183 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.57
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:11035162 original size:93 final size:93
Alignment explanation
Indices: 11035003--11035175 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
11034993 AGGATATTTG
* *
11035003 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAG
*
11035068 TTGAGTCTGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
11035096 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAG
11035161 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
11035176 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:11038139 original size:15 final size:15
Alignment explanation
Indices: 11038100--11038178 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
11038090 GTATCTTGGG
*
11038100 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
11038115 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
11038130 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
11038144 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
11038159 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
11038173 TTTCTT
1 TTTCTT
11038179 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:11038163 original size:29 final size:29
Alignment explanation
Indices: 11038091--11038177 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
11038081 CATAGTATCG
* * * *
11038091 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
11038121 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
11038150 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
11038178 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:11040613 original size:46 final size:46
Alignment explanation
Indices: 11040560--11040735 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11040550 GATTTGGGCA
11040560 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11040606 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
11040651 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
11040699 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11040736 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11040715 original size:93 final size:93
Alignment explanation
Indices: 11040556--11040727 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
11040546 CTAGGATTTG
* *
11040556 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11040621 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
11040649 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11040714 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
11040728 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:11051795 original size:31 final size:31
Alignment explanation
Indices: 11051755--11051862 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
11051745 TTTGTGAGAG
* *
11051755 TACAGGGTATAAATATGCAAATGTGATAGAT
1 TACAAGGTATAAATATGCAAATATGATAGAT
*
11051786 TACAAGGTATAAATATGAAAATATGATAGAT
1 TACAAGGTATAAATATGCAAATATGATAGAT
* * * *
11051817 CACATGGTAT-AATATGCAAATCT-AAATGA-
1 TACAAGGTATAAATATGCAAATATGATA-GAT
*
11051846 TACAAGGTATGAATATG
1 TACAAGGTATAAATATG
11051863 TTAATATGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
29 10 0.15
30 19 0.29
31 36 0.55
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (31 bp):
TACAAGGTATAAATATGCAAATATGATAGAT
Found at i:11053466 original size:6 final size:6
Alignment explanation
Indices: 11053441--11053479 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11053431 TCTAAATGAA
*
11053441 TTCATT TCTCATT TTTATT TTCATT TTCATT TTCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
11053480 GAGAAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:11057280 original size:21 final size:20
Alignment explanation
Indices: 11057256--11057295 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11057246 ACTTGTATAA
*
11057256 CTATCATCAAACATTCAAAAT
1 CTATCAACAAAC-TTCAAAAT
*
11057277 CTATCAAGAAACTTCAAAA
1 CTATCAACAAACTTCAAAA
11057296 CTCATGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.25
Consensus pattern (20 bp):
CTATCAACAAACTTCAAAAT
Found at i:11057553 original size:12 final size:12
Alignment explanation
Indices: 11057536--11057562 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11057526 TTCAGTTTTG
11057536 TTTTAATTATCA
1 TTTTAATTATCA
11057548 TTTTAATTATCA
1 TTTTAATTATCA
11057560 TTT
1 TTT
11057563 ACCATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAATTATCA
Found at i:11059834 original size:5 final size:5
Alignment explanation
Indices: 11059824--11059861 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
11059814 TTTGTTTTAG
*
11059824 ATTTT ATTTT ATTTT ATTTT A-TTT -TTGT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
11059862 TGGAAGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 5 0.17
5 24 0.83
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:11059856 original size:13 final size:13
Alignment explanation
Indices: 11059824--11059863 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
11059814 TTTGTTTTAG
*
11059824 ATTTTATTTTATTTT
1 ATTTTA-TTT-TTGT
11059839 ATTTTATTTTTGT
1 ATTTTATTTTTGT
11059852 ATTTTATTTTTG
1 ATTTTATTTTTG
11059864 GAAGTGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 15 0.62
14 3 0.12
15 6 0.25
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
ATTTTATTTTTGT
Found at i:11060549 original size:21 final size:21
Alignment explanation
Indices: 11060525--11060567 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11060515 CCCTTATACA
11060525 GGCGTGTCCCTGCT-TCACATG
1 GGCGTGTCCCT-CTATCACATG
*
11060546 GGCGTGTGCCTCTATCACATG
1 GGCGTGTCCCTCTATCACATG
11060567 G
1 G
11060568 CCATGTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (21 bp):
GGCGTGTCCCTCTATCACATG
Found at i:11066101 original size:23 final size:23
Alignment explanation
Indices: 11066073--11066165 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
11066063 ATGTGTGTAT
* *
11066073 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
11066096 CTTTTCATCTTCAAGT-TCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
11066118 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11066141 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11066164 CT
1 CT
11066166 CTTCTAACTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
22 19 0.32
23 41 0.68
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:11066127 original size:45 final size:46
Alignment explanation
Indices: 11066076--11066165 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 46
11066066 TGTGTATCTT
*
11066076 TTCATATTCAAGCCTCTTAACTTTTCATCTTCAAGT-TCTTCACTA
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
** * *
11066121 TTCATATTCAAGTTTTTTCACTTTTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACT
11066166 CTTCTAACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 31 0.79
46 8 0.21
ACGTcount: A:0.23, C:0.24, G:0.04, T:0.48
Consensus pattern (46 bp):
TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
Found at i:11070605 original size:23 final size:23
Alignment explanation
Indices: 11070577--11070670 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
11070567 ATGTGTGTAT
* *
11070577 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
11070600 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
11070623 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11070646 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11070669 CT
1 CT
11070671 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:11071439 original size:5 final size:5
Alignment explanation
Indices: 11071429--11071462 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
11071419 AGTGTAATCA
11071429 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
11071463 CCATTCGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:11072370 original size:14 final size:15
Alignment explanation
Indices: 11072351--11072379 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11072341 TAAAATGTTG
11072351 AAAAAAA-TATTTTT
1 AAAAAAATTATTTTT
11072365 AAAAAAATTATTTTT
1 AAAAAAATTATTTTT
11072380 GTATACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAAAATTATTTTT
Found at i:11076497 original size:15 final size:15
Alignment explanation
Indices: 11076479--11076509 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11076469 TAAAAATATA
11076479 ATAATAGTAACAAAT
1 ATAATAGTAACAAAT
*
11076494 ATAATAGTAATAAAT
1 ATAATAGTAACAAAT
11076509 A
1 A
11076510 GAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAATAGTAACAAAT
Found at i:11076660 original size:21 final size:21
Alignment explanation
Indices: 11076635--11076683 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11076625 ATAAAAATAA
11076635 AATAAAAATAAAAATAATAGT
1 AATAAAAATAAAAATAATAGT
** **
11076656 AATAATGATATTAATAATAGT
1 AATAAAAATAAAAATAATAGT
11076677 AATAAAA
1 AATAAAA
11076684 CAGAGAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAAAATAATAGT
Found at i:11076826 original size:3 final size:3
Alignment explanation
Indices: 11076820--11076929 Score: 73
Period size: 3 Copynumber: 36.7 Consensus size: 3
11076810 ATAGTTGTAG
* * * * * * *
11076820 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
11076867 T-A TAA CAA -AA TAA TAA TAA TCACG GAGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-A-A TA-A TAA TAA TAA TAA TAA TAA
*
11076913 TAA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
11076930 TAAATAAAAA
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 6 0.07
3 72 0.89
4 3 0.04
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:11076864 original size:20 final size:21
Alignment explanation
Indices: 11076825--11076864 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11076815 TGTAGTAATA
*
11076825 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
11076846 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
11076865 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:11076880 original size:19 final size:17
Alignment explanation
Indices: 11076846--11076923 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 17
11076836 AAAAATAGTG
11076846 ATAATATAACAATAATA
1 ATAATATAACAATAATA
*
11076863 GTAATATAACAA-AATA
1 ATAATATAACAATAATA
*
11076879 ATAATAATCACGGAGATAATA
1 ATAAT-ATAAC--A-ATAATA
*
11076900 ATAATAATAATAATAATA
1 ATAAT-ATAACAATAATA
*
11076918 CTAATA
1 ATAATA
11076924 ATAATATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
16 8 0.16
17 16 0.32
18 10 0.20
19 2 0.04
20 1 0.02
21 13 0.26
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATATAACAATAATA
Found at i:11076935 original size:12 final size:12
Alignment explanation
Indices: 11076896--11076945 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
11076886 TCACGGAGAT
11076896 AATAATAATA-A
1 AATAATAATATA
11076907 TAATAATAATACT-
1 -AATAATAATA-TA
11076920 AATAATAATATA
1 AATAATAATATA
*
11076932 AATAAAAATATA
1 AATAATAATATA
11076944 AA
1 AA
11076946 CAACAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 1 0.03
12 33 0.97
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATAATATA
Found at i:11077725 original size:12 final size:12
Alignment explanation
Indices: 11077708--11077732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11077698 TTGGGTTAGT
11077708 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11077720 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11077732 G
1 G
11077733 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:11078439 original size:205 final size:204
Alignment explanation
Indices: 11078077--11078857 Score: 1219
Period size: 205 Copynumber: 3.8 Consensus size: 204
11078067 CTATTTCTTT
* * * * * **
11078077 GTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTACGCACGTGAAAGCC
1 GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCC
* * * *
11078142 AAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTTGGATCCGCT
66 AAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
* *
11078206 TCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAA
131 TCAG-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAA
11078271 ACTTCGATTC
195 ACTTCGATTC
* *
11078281 GTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TTGTAATCACGTGAAAGC
1 GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCACGTGAAAGC
*
11078345 CAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGC
65 CAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGC
*
11078410 TTCAG-TGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCC
130 TTCAGAT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCC
11078474 AAACTTCGATTC
193 AAACTTCGATTC
*
11078486 GTTCTCTGACAATACAGAGACGATAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCC
1 GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCC
* * *
11078551 AAATCAGCTATGTCTTCGACTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGTT
66 AAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
11078616 TCAGCATAAACATCTGAAGGTC-AGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCA
131 TCAG-ATAAACATCTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCA
11078680 AACTTCGATTC
194 AACTTCGATTC
* *
11078691 GTTCTCTAACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCATGTGAAAGCC
1 GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCC
* *
11078756 AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
66 AAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
** *
11078821 TCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGT
131 TCAGATAAA-CATCTGAAGGCGAGATCTGCTATGTGT
11078858 GGCCTATTAC
Statistics
Matches: 533, Mismatches: 34, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
203 1 0.00
204 74 0.14
205 453 0.85
206 4 0.01
207 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (204 bp):
GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCC
AAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
TCAGATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAA
CTTCGATTC
Found at i:11086778 original size:15 final size:15
Alignment explanation
Indices: 11086758--11086788 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11086748 TTCTAGATTT
*
11086758 TCTTTTTTACCTCTC
1 TCTTTTCTACCTCTC
11086773 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
11086788 T
1 T
11086789 GGAAAGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:11086874 original size:15 final size:14
Alignment explanation
Indices: 11086832--11086881 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11086822 ATAACTTTGA
*
11086832 ATGCAAATGATGTG
1 ATGCAAATGATGAG
11086846 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
11086861 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
11086875 ATGCAAA
1 ATGCAAA
11086882 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:11090465 original size:15 final size:15
Alignment explanation
Indices: 11090447--11090477 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11090437 TAAAAATATA
11090447 ATAATAGTAACAAAT
1 ATAATAGTAACAAAT
*
11090462 ATAATAGTAATAAAT
1 ATAATAGTAACAAAT
11090477 A
1 A
11090478 GAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAATAGTAACAAAT
Found at i:11090628 original size:21 final size:21
Alignment explanation
Indices: 11090603--11090650 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
11090593 ATAAAAATAA
11090603 AATAAAAATAAAAATAATAGT
1 AATAAAAATAAAAATAATAGT
** **
11090624 AATAATGATATTAATAATAGT
1 AATAAAAATAAAAATAATAGT
11090645 AATAAA
1 AATAAA
11090651 CAGAGAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAAAATAATAGT
Found at i:11090765 original size:3 final size:3
Alignment explanation
Indices: 11090759--11090859 Score: 55
Period size: 3 Copynumber: 33.7 Consensus size: 3
11090749 ATAGTTGTAG
* * * * * * *
11090759 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
11090806 T-A TAA CAA -AA TAA TAA TAA TAG TCACG GAGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-A-A TA-A TAA TAA TAA TAA TAA
11090852 TAA TAA TA
1 TAA TAA TA
11090860 TAAATAAAAA
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
2 6 0.08
3 64 0.86
4 3 0.04
5 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:11090803 original size:20 final size:21
Alignment explanation
Indices: 11090764--11090803 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11090754 TGTAGTAATA
*
11090764 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
11090785 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
11090804 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:11090819 original size:19 final size:17
Alignment explanation
Indices: 11090785--11090823 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
11090775 AAAAATAGTG
11090785 ATAATATAACAATAATA
1 ATAATATAACAATAATA
*
11090802 GTAATATAACAA-AATA
1 ATAATATAACAATAATA
11090818 ATAATA
1 ATAATA
11090824 ATAGTCACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (17 bp):
ATAATATAACAATAATA
Found at i:11090865 original size:12 final size:12
Alignment explanation
Indices: 11090838--11090875 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11090828 TCACGGAGAT
11090838 AATAATAATA-A
1 AATAATAATATA
11090849 TAATAATAATATA
1 -AATAATAATATA
*
11090862 AATAAAAATATA
1 AATAATAATATA
11090874 AA
1 AA
11090876 CAACAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 23 0.96
13 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATATA
Found at i:11091652 original size:12 final size:12
Alignment explanation
Indices: 11091635--11091659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11091625 TTGGGTTAGT
11091635 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11091647 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11091659 G
1 G
11091660 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:11091884 original size:12 final size:13
Alignment explanation
Indices: 11091864--11091900 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
11091854 TTATTTTACA
11091864 TATTATTTATTTT
1 TATTATTTATTTT
11091877 TATT-TTTA-TTT
1 TATTATTTATTTT
*
11091888 TATAATTTATTTT
1 TATTATTTATTTT
11091901 AAATTTGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTATTTT
Found at i:11092076 original size:15 final size:18
Alignment explanation
Indices: 11092038--11092081 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
11092028 CTTATCACAT
11092038 TTTATTTATTTTAATTTGG
1 TTTATTT-TTTTAATTTGG
11092057 TTTATTTTTTT-ATTT-G
1 TTTATTTTTTTAATTTGG
11092073 TTATATTTT
1 TT-TATTTT
11092082 AAAATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 4 0.17
19 7 0.29
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTATTTTTTTAATTTGG
Found at i:11094148 original size:24 final size:24
Alignment explanation
Indices: 11094121--11094167 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11094111 ATCAAAGGGT
* *
11094121 AGAAAAACTAGAGCAACTTCAAAG
1 AGAAAAACAAGAGCAACTGCAAAG
**
11094145 AGAAATGCAAGAGCAACTGCAAA
1 AGAAAAACAAGAGCAACTGCAAA
11094168 TGCAAATGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.19, T:0.11
Consensus pattern (24 bp):
AGAAAAACAAGAGCAACTGCAAAG
Found at i:11094174 original size:24 final size:24
Alignment explanation
Indices: 11094130--11094175 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11094120 TAGAAAAACT
* *
11094130 AGAGCAACTTCAAAGAGAAATGCA
1 AGAGCAACTGCAAAGACAAATGCA
11094154 AGAGCAACTGCAAATG-CAAATG
1 AGAGCAACTGCAAA-GACAAATG
11094176 TAAATGCAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (24 bp):
AGAGCAACTGCAAAGACAAATGCA
Found at i:11096817 original size:7 final size:7
Alignment explanation
Indices: 11096807--11096831 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11096797 AAGAAAAAAC
11096807 AAAAGTA
1 AAAAGTA
11096814 AAAAGTA
1 AAAAGTA
11096821 AAAAGTA
1 AAAAGTA
11096828 AAAA
1 AAAA
11096832 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAGTA
Found at i:11096842 original size:26 final size:26
Alignment explanation
Indices: 11096794--11096844 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11096784 AAAGGCAGCC
**
11096794 AAAAAGAAAAAACAAAAGTAAAAAGT
1 AAAAAGAAAAAACAAAAACAAAAAGT
11096820 AAAAAGTAAAAAA-AAAAACAAAAAG
1 AAAAAG-AAAAAACAAAAACAAAAAG
11096845 ATCATGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (26 bp):
AAAAAGAAAAAACAAAAACAAAAAGT
Found at i:11097398 original size:10 final size:9
Alignment explanation
Indices: 11097385--11097423 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
11097375 AAAAAAAATC
11097385 AAAAATTAA
1 AAAAATTAA
11097394 AAAAATTAA
1 AAAAATTAA
11097403 AAAAATTAA
1 AAAAATTAA
11097412 AAATAA-TAA
1 AAA-AATTAA
11097421 AAA
1 AAA
11097424 CAAAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 27 0.93
10 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:11097443 original size:10 final size:9
Alignment explanation
Indices: 11097375--11097444 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
11097365 CTTGAGACCC
11097375 AAAAAAAAT
1 AAAAAAAAT
* *
11097384 -CAAAAATT
1 AAAAAAAAT
*
11097392 AAAAAAATT
1 AAAAAAAAT
*
11097401 AAAAAAATT
1 AAAAAAAAT
*
11097410 AAAAATAAT
1 AAAAAAAAT
11097419 AAAAACAAA-
1 AAAAA-AAAT
*
11097428 ACAAAAAAT
1 AAAAAAAAT
11097437 AATAAAAA
1 AA-AAAAA
11097445 GGAAGAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 9 0.18
9 33 0.67
10 7 0.14
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:11097458 original size:24 final size:21
Alignment explanation
Indices: 11097401--11097444 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11097391 TAAAAAAATT
**
11097401 AAAAAAATTAAAAATAATAAA
1 AAAAAAACAAAAAATAATAAA
*
11097422 AACAAAACAAAAAATAATAAA
1 AAAAAAACAAAAAATAATAAA
11097443 AA
1 AA
11097445 GGAAGAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAAAACAAAAAATAATAAA
Found at i:11098903 original size:44 final size:44
Alignment explanation
Indices: 11098854--11099038 Score: 221
Period size: 44 Copynumber: 4.2 Consensus size: 44
11098844 TAGCCACTAG
* * *
11098854 CTTATCTCTCTGAGGTAGCAAAGGAGCATACTAAAGATTGTAGC
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* * *
11098898 CTTATCTCTCTGAGGTAGCAAGGGAACAGGCTGAAA-ATTATAGT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACT-AAAGATTGTAGT
*
11098942 CTTATCT-TCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGT
1 CTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* * * *
11098986 CTTATCTTTCTGAGGTAACAAGGGAGCAGACTGAGGATTGTAGAT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAG-T
*
11099031 CTTGTCTC
1 CTTATCTC
11099039 CTCGAGATAG
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
43 4 0.03
44 107 0.88
45 11 0.09
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
Found at i:11098968 original size:88 final size:88
Alignment explanation
Indices: 11098854--11099019 Score: 244
Period size: 88 Copynumber: 1.9 Consensus size: 88
11098844 TAGCCACTAG
* *
11098854 CTTATCTCTCTGAGGTAGCAAAGGAGCATACTAAAGATTGTAGCCTTATCTCTCTGAGGTAGCAA
1 CTTATCTCTCTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACAA
*
11098919 GGGAACAGGCTGAAAATTATAGT
66 GGGAACAGACTGAAAATTATAGT
* * * *
11098942 CTTATCT-TCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTTTCTGAGGTAACA
1 CTTATCTCT-CTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACA
*
11099006 AGGGAGCAGACTGA
65 AGGGAACAGACTGA
11099020 GGATTGTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 1 0.01
88 68 0.99
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (88 bp):
CTTATCTCTCTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACAA
GGGAACAGACTGAAAATTATAGT
Found at i:11099152 original size:44 final size:44
Alignment explanation
Indices: 11099089--11099189 Score: 166
Period size: 44 Copynumber: 2.3 Consensus size: 44
11099079 ATCTTTCCGA
*
11099089 GGTAGTAAGGGAGTAGGTTTAAGCCACCAGCCTTTTCTCTCTAG
1 GGTAGCAAGGGAGTAGGTTTAAGCCACCAGCCTTTTCTCTCTAG
* * *
11099133 GGTAGCAAGGGCGTAGGTTTTAGCCACCAGCCTTTTCTCTCTGG
1 GGTAGCAAGGGAGTAGGTTTAAGCCACCAGCCTTTTCTCTCTAG
11099177 GGTAGCAAGGGAG
1 GGTAGCAAGGGAG
11099190 CAAGCTGAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (44 bp):
GGTAGCAAGGGAGTAGGTTTAAGCCACCAGCCTTTTCTCTCTAG
Found at i:11099395 original size:44 final size:45
Alignment explanation
Indices: 11099341--11099443 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
11099331 AGCCACCTGC
* *
11099341 CTTATCTTCCTGAGGTAGTAAAG-AAGCAGGCCGAAGATTGTA-CT
1 CTTATCTTCCTGAGGTAG-AAAGAAAGCAGACCGAAGATTGTAGAT
* * * *
11099385 CTTATCTTCCTAAGGTAGCAAGAAAGTAGACTGAAGATTGTAGAT
1 CTTATCTTCCTGAGGTAGAAAGAAAGCAGACCGAAGATTGTAGAT
*
11099430 CTTATCTCCCTGAG
1 CTTATCTTCCTGAG
11099444 ATAGCAGTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 3 0.06
44 33 0.67
45 13 0.27
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTTCCTGAGGTAGAAAGAAAGCAGACCGAAGATTGTAGAT
Found at i:11099447 original size:177 final size:176
Alignment explanation
Indices: 11099151--11099684 Score: 562
Period size: 177 Copynumber: 3.0 Consensus size: 176
11099141 GGGCGTAGGT
* * * *
11099151 TTTAGCCACCAGCCTTTTC-TCTCTGGGGTAGCAAGGGAGCAAGCTGAAGATTGTAGC-CTTACC
1 TTTAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGAAGCAAGCTGAAGATTGTA-CTCTTATC
* *
11099214 TTCCTAAGGTAGCAAGGGAGAAGACTGAGGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGG
64 TTCCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGG
* *
11099279 TAGATCGAAAATGGCGAATCTTATCTTTCCAAGGTAGCAATGGAGCAGA
129 AAGATCGAAAATGGCGAATCTTATCTTCCCAAGGTAG-AATGGAGCAGA
* * * * *
11099328 TTTAGCCACCTGCCTTATCTTCCTGAGGTAGTAAAGAAGCAGGCCGAAGATTGTACTCTTATCTT
1 TTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAAGCTGAAGATTGTACTCTTATCTT
** * * * *
11099393 CCTAAGGTAGCAAGAAAGTAGACTGAAGATTGTAGATCTTATCTCC-CTGAGATAGCAGTGGAGC
66 CCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTC-GAGATAGTAGTGGGGA
* * * **
11099457 AGATC-AAAGATAGCGAATCTTATCTTCCCGAGGTTGTAGGGGAGCAGA
130 AGATCGAAA-ATGGCGAATCTTATCTTCCCAAGGTAG-AATGGAGCAGA
* * * *
11099505 TTTTAGCCACCAGCCTTAT-TTCCCTAAGGTAGCAAGGGAA-TAAGCTGAAGATTGTAGTATTAT
1 -TTTAGCCACCAGCCTTATCTT-CCTGAGGTAGCAA-GGAAGCAAGCTGAAGATTGTACTCTTAT
* * * * * *
11099568 CTTCTTGAGGTAGCAAGGGAGTAGACTGATGATT-CAGAT-TTGGTCTCTTCAAGATAGTAGTGG
63 CTTCCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTT-GTCTCCTCGAGATAGTAGTGG
* ** * *
11099631 GAAAGATCGAAAGCGACGAATCTTATCTTCCCAAGGTAGTATGGGAGCAGA
127 GGAAGATCGAAAATGGCGAATCTTATCTTCCCAAGGTAGAAT-GGAGCAGA
11099682 TTT
1 TTT
11099685 TAAGTCACTA
Statistics
Matches: 291, Mismatches: 55, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
176 10 0.03
177 197 0.68
178 81 0.28
179 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (176 bp):
TTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAAGCTGAAGATTGTACTCTTATCTT
CCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGGAA
GATCGAAAATGGCGAATCTTATCTTCCCAAGGTAGAATGGAGCAGA
Found at i:11099786 original size:133 final size:131
Alignment explanation
Indices: 11099634--11100128 Score: 500
Period size: 132 Copynumber: 3.7 Consensus size: 131
11099624 GTAGTGGGAA
* *
11099634 AGATCGAAAG-CGACGAATCTTATCTTCCCAAGGTAGTATGGGAGCAGATTTTAAGTCACTAGCC
1 AGATC-AAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGA-TTTAAGCCACTAGCC
* *
11099698 TTGTCTCCCTGAGCAACAGTGGAGTAAGCTAAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTG
64 TTATCTCCCTGAGCAACAGTGGAG-AAGCTGAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTG
11099763 GAGC
128 GAGC
* *
11099767 AGATCAAAGACGGCGAATCTTATCTT-CCAGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCT
1 AGATCAAAGACGACGAATCTTATCTTCCCA-AGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCT
* ** * * * *
11099831 TATCTCCCTGAGCAACAGTGGAGCAGGCTGAAGATTGTAGATCTTATCT-CTTGAAGCAGTAATG
65 TATCTCCCTGAGCAACAGTGGAG-AAGCTGAAGATTGTAGAAATTTTCTCCCTG-AGCAGCAGTG
*
11099895 GAGT
128 GAGC
* * ** * * * * **
11099899 AGATCGAAGATGGTGAATCTTATCTTCTCGAGGTAGTAGGGGAGTAGATTTAAGCCACCAATCTT
1 AGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCTT
* * * *
11099964 ATCTTCCTGAAGTAGCAAG-GGAGCAGACTGAAGATTGT--AAATCTTATCTCCCTGAGCAGCAG
66 ATCTCCCTG-AGCAAC-AGTGGAGAAG-CTGAAGATTGTAGAAAT-TT-TCTCCCTGAGCAGCAG
11100026 TGGAGC
126 TGGAGC
* * **
11100032 AGATCGAAGACAACGAATCTTATCTTCCTGAGGTAGTAGGGGAGCA-ATTTGAAGCCACTAGCCT
1 AGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTT-AAGCCACTAGCCT
** *
11100096 TATCTCCCTAGAGCTGCAGTGGAGCAAGGTGAA
65 TATCTCCCT-GAGCAACAGTGGAG-AAGCTGAA
11100129 ATTACCAGTT
Statistics
Matches: 296, Mismatches: 52, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
131 5 0.02
132 144 0.49
133 139 0.47
134 8 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (131 bp):
AGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCTT
ATCTCCCTGAGCAACAGTGGAGAAGCTGAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTGGAG
C
Found at i:11107089 original size:12 final size:12
Alignment explanation
Indices: 11107072--11107106 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11107062 GGCCTAGACA
11107072 CGCCCATGTCCT
1 CGCCCATGTCCT
11107084 CGCCCATGTCCT
1 CGCCCATGTCCT
* *
11107096 CACCCGTGTCC
1 CGCCCATGTCC
11107107 AAAAACCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.51, G:0.17, T:0.23
Consensus pattern (12 bp):
CGCCCATGTCCT
Found at i:11122652 original size:12 final size:12
Alignment explanation
Indices: 11122635--11122659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11122625 AGTGTCGTAT
11122635 CGATAACAGTAA
1 CGATAACAGTAA
11122647 CGATAACAGTAA
1 CGATAACAGTAA
11122659 C
1 C
11122660 AGTAATCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CGATAACAGTAA
Found at i:11130363 original size:6 final size:6
Alignment explanation
Indices: 11130337--11130386 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
11130327 ACAGTACCTA
* * *
11130337 AACAGT AATCAAT AACAGT AGCAGT AGCAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
11130386 A
1 A
11130387 TTCAACATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:11130737 original size:40 final size:40
Alignment explanation
Indices: 11130677--11130760 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
11130667 AATTCATTGC
* * * * *
11130677 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
* *
11130717 TTCAATAACTTCACAATTCAATTCAATACTCAAAACAATA
1 TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
11130757 TTCA
1 TTCA
11130761 GTATTCTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
Found at i:11137647 original size:28 final size:28
Alignment explanation
Indices: 11137614--11137670 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11137604 CTAATTAAAT
11137614 TGAAATGGATAAACTTCTTTCATTATAA
1 TGAAATGGATAAACTTCTTTCATTATAA
*
11137642 TGAAATGGATAAACTTCTTTCGTTATAA
1 TGAAATGGATAAACTTCTTTCATTATAA
11137670 T
1 T
11137671 TCTTAGACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (28 bp):
TGAAATGGATAAACTTCTTTCATTATAA
Found at i:11138218 original size:6 final size:6
Alignment explanation
Indices: 11138185--11138234 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
11138175 ACAGTACCTA
* *
11138185 AACAGT AATCAGT AACAGT AGCAAT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
11138234 A
1 A
11138235 TTCAACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:11138275 original size:45 final size:45
Alignment explanation
Indices: 11138214--11138322 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
11138204 AGCAATAACA
* *
11138214 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT-
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAAT-TG
* *
11138259 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATTG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATTG
*
11138304 GTAACGGTAACGGTAACAG
1 GTAACAGTAACGGTAACAG
11138323 AAACAGTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATTG
Found at i:11138320 original size:51 final size:49
Alignment explanation
Indices: 11138209--11138339 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 49
11138199 ACAGTAGCAA
* *
11138209 TAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTG
1 TAAC-GTAAC-GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCTG
*
11138260 TAA--T-A-GTAACGGTAACAGTATTCGACACACAAAGTGTCGAAT-TGG
1 TAACGTAACGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCT-G
* *
11138305 TAACGGTAACGGTAACAGAAACAGTAGTCGACACA
1 TAAC-GTAAC-GTAACAGTAACAGTATTCGACACA
11138340 TAAGTGCCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
44 1 0.01
45 38 0.57
47 1 0.01
48 2 0.03
49 1 0.01
51 24 0.36
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (49 bp):
TAACGTAACGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCTG
Done.